millironx/nf-core_modules
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7 commits

Author SHA1 Message Date
JIANHONG OU
9475960928
Bwa index (#1040) 
* fix a bug that the prefix is not handled by index.

* build the test.yml

Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
 2021-11-15 11:26:01 +00:00
Harshil Patel
3c5492b4a3
Fix more version commands (#750) 
* Fix outstanding tests

* Fix more version commands

* Fix remaining modules
 2021-09-28 06:56:27 +01:00
Harshil Patel
43c2779258
Fix version commands (#749) 
* Fix version commands

* Fix version commands: again
 2021-09-27 22:10:37 +01:00
James A. Fellows Yates
4f1c1601cf
module: bwa/sampe (#625) 
* Specify more guidelines on input channels

* Linting

* Updates based on code review

* Update README.md

* Fix broken sentence

* Add bwa/aln module

* Also output reads as required with SAI

* Add sampe

* Fix container paths

* Update based on code review from @grst

* Update input docs
 2021-08-02 15:37:48 +02:00
James A. Fellows Yates
8a2f01c416
module: bwa/samse (#626) 
* Specify more guidelines on input channels

* Linting

* Updates based on code review

* Update README.md

* Fix broken sentence

* Add bwa/aln module

* Also output reads as required with SAI

* Add bwa samse

* Fix container paths

* remove TODO comment

* Updated based on code from from @grst on bwa/sampe

* Clarify output docs
 2021-08-02 15:21:23 +02:00
James A. Fellows Yates
45dee96bdf
module: bwa/aln (#624) 
* Specify more guidelines on input channels

* Linting

* Updates based on code review

* Update README.md

* Fix broken sentence

* Add bwa/aln module

* Also output reads as required with SAI

* fix container paths

* Sync bwa version samese/sampe

* Apply suggestions from code review

Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
 2021-07-27 08:13:48 +01:00
Harshil Patel
e937c7950a
Rename software/ directory to modules/ to re-organise module structure (#567) 
* Update README

* Rename pytest_software.yml to pytest_modules.yml

* Rename main software directory to modules

* Remove deprecated modules

* Rename tests software to modules

* Replace paths for tests in pytest_modules.yml

* Replace software with modules in Github Actions

* Replace software with modules in main.nf tests

* Rename software to modules in test.yml
 2021-07-07 10:10:18 +01:00